CBE/ENGR 225 Faculty Seminar: Professor B.S. Manjunath, Dept. of Electrical and Computer Engineering, UCSB
B.S. Manjunath, Ph.D.
Professor, Dept. of Electrical & Computer Engineering
University of California, Santa Barbara
Tuesday, January 12, 2016
*coffee & cookies served*
Scalable and Reproducible Image Informatics for Life Sciences Applications
ABSTRACT: Recent advances in microscopy imaging, image processing, and computing technologies enable large scale scientific experiments that generate not only large collections of images and video, but also pose new computing and information processing challenges. These include providing ubiquitous access to images, videos and metadata resources; creating easily accessible image and video analysis, visualizations and workflows; and publishing both data and analysis resources. Further, contextual metadata, such as experimental conditions in biology, are critical for quantitative analysis. Streamlining collaborative efforts across distributed research teams with online virtual environments will improve scientific productivity, enhance understanding of complex phenomena and allow a growing number of researchers to quantify conditions based on image evidence that so far have remained subjective. This talk will focus on recent work in my group on image segmentation and quantification, followed by a detailed description of the BisQue platform. BisQue (Bio-Image Semantic Query and Environment) is an open-source platform for integrating image collections, metadata, analysis, visualization and database methods for querying and search. We have developed new techniques for managing user-defined datamodels for biological datasets, including experimental protocols, images, and analysis. BisQue is currently used in many laboratories around the world and is integrated into the iPlant cyber-infrastructure (see http://www.iplantcollaborative.org) which serves the plant biology community. For more information on BisQue see http://www.bioimage.ucsb.edu.